Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut	init_n_lod
MCOLN2	255231	broad.mit.edu	37	1	85424250	85424250	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:85424250C>G	uc001dkm.2	-	3	614	c.373G>C	c.(373-375)GAG>CAG	p.E125Q	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	125						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		TAGGCATCCTCTTGAGTATAT	0.353000													14	111					0	0	1	0	0	
NBPF9	400818	broad.mit.edu	37	1	144615237	144615237	+	Missense_Mutation	SNP	T	G	G	rs77154268	by1000genomes	TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:144615237T>G	uc009wig.1	+	3	183	c.107T>G	c.(106-108)GTA>GGA	p.V36G	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_5'UTR|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_5'UTR|NBPF9_uc010oyg.1_Missense_Mutation_p.V36G|NBPF9_uc009wii.1_5'UTR|NBPF9_uc009wif.1_RNA|C1orf152_uc001elf.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	36						cytoplasm					0						CAGCAGTTCGTAAACCTCAAA	0.478000													6	38					0	0	1	0	0	
NBPF9	400818	broad.mit.edu	37	1	144828683	144828683	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:144828683C>G	uc009wig.1	+	23	2804	c.2728C>G	c.(2728-2730)CAG>GAG	p.Q910E	NBPF9_uc010oxn.1_Missense_Mutation_p.Q808E|NBPF9_uc010oxo.1_Missense_Mutation_p.Q835E|NBPF9_uc010oxr.1_Missense_Mutation_p.Q937E|NBPF9_uc010oxt.1_Missense_Mutation_p.Q725E|NBPF9_uc001ekg.1_Missense_Mutation_p.Q237E|NBPF9_uc001ekk.1_Missense_Mutation_p.Q481E|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Missense_Mutation_p.Q237E|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Missense_Mutation_p.Q570E|uc001elr.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	910	NBPF 7.					cytoplasm					0						ATTTGAGGAACAGCACATCAG	0.438000													23	376					0	0	1	0	0	
NBPF9	400818	broad.mit.edu	37	1	144828688	144828688	+	Silent	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:144828688C>T	uc009wig.1	+	23	2809	c.2733C>T	c.(2731-2733)CAC>CAT	p.H911H	NBPF9_uc010oxn.1_Silent_p.H809H|NBPF9_uc010oxo.1_Silent_p.H836H|NBPF9_uc010oxr.1_Silent_p.H938H|NBPF9_uc010oxt.1_Silent_p.H726H|NBPF9_uc001ekg.1_Silent_p.H238H|NBPF9_uc001ekk.1_Silent_p.H482H|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Silent_p.H238H|NBPF9_uc010oye.1_Intron|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Silent_p.H571H|uc001elr.3_5'Flank	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	911	NBPF 7.					cytoplasm					0						AGGAACAGCACATCAGCTTCG	0.433000													18	365					0	0	1	0	0	
NBPF10	100132406	broad.mit.edu	37	1	145296448	145296448	+	Missense_Mutation	SNP	T	A	A	rs4996268	by1000genomes	TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:145296448T>A	uc001end.3	+	3	405	c.370T>A	c.(370-372)TAT>AAT	p.Y124N	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_Missense_Mutation_p.Y124N|NBPF10_uc001emq.1_Intron	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	124											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CCGCTCATTGTATGAGCATCT	0.562000													22	215					0	0	1	0	0	
POLR3C	10623	broad.mit.edu	37	1	145608112	145608112	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:145608112C>G	uc001eoh.2	-	4	746	c.585G>C	c.(583-585)TTG>TTC	p.L195F	NBPF10_uc001emp.3_Intron|RNF115_uc001eoj.2_5'Flank|RNF115_uc001eok.2_5'Flank|RNF115_uc009wiy.2_5'Flank|POLR3C_uc001eog.2_Missense_Mutation_p.L208F|POLR3C_uc001eoi.2_RNA|POLR3C_uc009wix.2_Missense_Mutation_p.L195F	NM_006468	NP_006459	Q9BUI4	RPC3_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	195					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)		Epithelial(2;7.55e-13)			CCTTACCTATCAAGCTGAGTT	0.413000													22	113					0	0	1	0	0	
F11R	50848	broad.mit.edu	37	1	160970514	160970514	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:160970514C>G	uc009wtt.2	-	4	565	c.295G>C	c.(295-297)GTG>CTG	p.V99L	F11R_uc010pjv.1_Intron|F11R_uc001fxe.3_Missense_Mutation_p.V99L|F11R_uc009wtu.2_Missense_Mutation_p.V99L|F11R_uc010pjw.1_Missense_Mutation_p.V103L|F11R_uc001fxf.3_Missense_Mutation_p.V99L	NM_016946	NP_058642	Q9Y624	JAM1_HUMAN	F11 receptor precursor	99	Extracellular (Potential).|Ig-like V-type 1.				blood coagulation|inflammatory response|interspecies interaction between organisms|leukocyte migration|tight junction assembly	integral to membrane|tight junction				ovary(2)	2	all_cancers(52;6.73e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00207)			TCCCGTGTCACGGACTTGAAG	0.537000													17	81					0	0	1	0	0	
LHX9	56956	broad.mit.edu	37	1	197898303	197898303	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:197898303A>G	uc001guk.1	+	5	1545	c.1108A>G	c.(1108-1110)ATC>GTC	p.I370V	LHX9_uc001gui.1_Missense_Mutation_p.I361V|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	370					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CAATCCCACTATCACTGTAGT	0.532000													81	12					0	0	1	0	0	
OR2W5	441932	broad.mit.edu	37	1	247654603	247654603	+	Silent	SNP	C	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:247654603C>A	uc001icz.1	+	1	174	c.174C>A	c.(172-174)CCC>CCA	p.P58P		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			TCCACACACCCATGTACTTCT	0.498000													12	46					9.31168e-06	9.56679e-06	1	1	0	
OR2L13	284521	broad.mit.edu	37	1	248262671	248262671	+	Translation_Start_Site	SNP	A	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr1:248262671A>T	uc001ids.2	+	3	331	c.-6A>T	c.(-8--4)AAAGT>AATGT			NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TACAGCAGAAAGTTTTCATGG	0.259000													34	63					0	0	1	0	0	
DMBT1	1755	broad.mit.edu	37	10	124377716	124377716	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr10:124377716A>G	uc001lgk.1	+	38	4794	c.4688A>G	c.(4687-4689)CAG>CGG	p.Q1563R	DMBT1_uc001lgl.1_Missense_Mutation_p.Q1553R|DMBT1_uc001lgm.1_Missense_Mutation_p.Q935R|DMBT1_uc009xzz.1_Missense_Mutation_p.Q1563R|DMBT1_uc010qtx.1_Missense_Mutation_p.Q414R|DMBT1_uc009yab.1_Missense_Mutation_p.Q266R|DMBT1_uc009yac.1_5'Flank	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1563	SRCR 12.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GGAAATGCCCAGTTTGGCCAG	0.612000													53	162					0	0	1	0	0	
OR4A47	403253	broad.mit.edu	37	11	48510989	48510989	+	Silent	SNP	T	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr11:48510989T>C	uc010rhx.1	+	1	645	c.645T>C	c.(643-645)TCT>TCC	p.S215S		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TACTCATCTCTTATGGTGTCA	0.463000													25	69					0	0	1	0	0	
OR5M3	219482	broad.mit.edu	37	11	56237826	56237826	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr11:56237826T>C	uc010rjk.1	-	1	148	c.148A>G	c.(148-150)AGT>GGT	p.S50G		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AGCTGAGGACTGACCTTGATT	0.433000													26	82					0	0	1	0	0	
LRRK2	120892	broad.mit.edu	37	12	40692056	40692056	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:40692056T>G	uc001rmg.3	+	24	3229	c.3108T>G	c.(3106-3108)AGT>AGG	p.S1036R	LRRK2_uc001rmh.1_Missense_Mutation_p.S658R|LRRK2_uc009zjw.2_5'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1036	LRR 3.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTCTGAAGAGTTTGACACATT	0.333000													15	24					0	0	1	0	0	
C12orf66	144577	broad.mit.edu	37	12	64587772	64587772	+	Silent	SNP	G	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:64587772G>C	uc001srw.3	-	3	1247	c.1188C>G	c.(1186-1188)ACC>ACG	p.T396T	C12orf66_uc009zql.2_Silent_p.T343T	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	396										ovary(1)	1						GTTCCGGGCGGGTTAGGAAGT	0.448000													8	146					0	0	1	0	0	
PLBD2	196463	broad.mit.edu	37	12	113812717	113812717	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:113812717G>A	uc001tve.2	+	5	799	c.764G>A	c.(763-765)AGT>AAT	p.S255N	PLBD2_uc001tvf.2_Missense_Mutation_p.S255N	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	255					lipid catabolic process	lysosomal lumen	hydrolase activity				0						CCTGGCCAGAGTGACCTCCTG	0.582000													24	47					0	0	1	0	0	
GCN1L1	10985	broad.mit.edu	37	12	120575538	120575538	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:120575538C>G	uc001txo.2	-	49	6487	c.6474G>C	c.(6472-6474)GAG>GAC	p.E2158D		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2158					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGCGGGTGGCCTCCAGCAGAT	0.572000													12	37					0	0	1	0	0	
RIMBP2	23504	broad.mit.edu	37	12	130898838	130898838	+	Silent	SNP	T	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr12:130898838T>C	uc001uil.2	-	14	2648	c.2484A>G	c.(2482-2484)CGA>CGG	p.R828R		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	828						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AAAGGCGGTCTCGCCCGTAAT	0.572000													18	35					0	0	1	0	0	
C14orf145	145508	broad.mit.edu	37	14	81251532	81251532	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr14:81251532G>C	uc001xux.2	-	14	2089	c.1918C>G	c.(1918-1920)CTG>GTG	p.L640V	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	640	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		ATGGCACTCAGGTCCTTGATG	0.478000													23	97					0	0	1	0	0	
ADAM6	8755	broad.mit.edu	37	14	106926336	106926336	+	RNA	SNP	A	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr14:106926336A>C	uc010tyt.1	-	235		c.10219T>G			uc010tyu.1_Intron					Parts of antibodies, mostly variable regions.												0						CCAACTAATAAGAGAGACCCA	0.507000													71	119					0	0	1	0	0	
GOLGA8DP	100132979	broad.mit.edu	37	15	22709637	22709637	+	Missense_Mutation	SNP	T	G	G	rs140467724	by1000genomes	TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr15:22709637T>G	uc010axw.2	-	10	1148	c.250A>C	c.(250-252)AAC>CAC	p.N84H	GOLGA8DP_uc010axx.2_Missense_Mutation_p.N84H|uc010tzw.1_5'Flank	NM_001012423	NP_001012423			golgi autoantigen, golgin subfamily a, 8E												0						CCCATCTGGTTTTTGAGTTTG	0.547000													12	93					0	0	1	0	0	
LOC645752	645752	broad.mit.edu	37	15	78212571	78212571	+	Translation_Start_Site	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr15:78212571G>A	uc010bky.2	-	8	668	c.-96C>T	c.(-98--94)CACGT>CATGT			NR_027024				SubName: Full=GOLGA6 protein; Flags: Fragment;												0						CCTGTGTCACGTGTGCGTTCA	0.572000													5	35					0	0	1	0	0	
C15orf26	161502	broad.mit.edu	37	15	81428957	81428957	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr15:81428957G>A	uc002bgb.2	+	3	287	c.260G>A	c.(259-261)CGT>CAT	p.R87H	C15orf26_uc010blp.1_Missense_Mutation_p.R62H	NM_173528	NP_775799	Q6P656	CO026_HUMAN	hypothetical protein LOC161502	87											0						GTGTTTCTGCGTGGGGACCTG	0.473000													16	47					0	0	1	0	0	
WASH3P	374666	broad.mit.edu	37	15	102515257	102515257	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr15:102515257C>T	uc002cdi.2	+	9	1901	c.481C>T	c.(481-483)CGG>TGG	p.R161W	WASH3P_uc002cdl.2_Missense_Mutation_p.R161W|WASH3P_uc002cdk.2_RNA|WASH3P_uc002cdp.2_Missense_Mutation_p.R161W|WASH3P_uc010bpo.2_RNA|WASH3P_uc002cdq.2_RNA|WASH3P_uc002cdr.2_RNA	NR_003659				RecName: Full=WAS protein family homolog 2; AltName: Full=Protein FAM39B; AltName: Full=CXYorf1-like protein on chromosome 2;												0						CTCCGGTGGCCGGGCCACTCT	0.647000													2	4					0	0	1	0	0	
RANBP10	57610	broad.mit.edu	37	16	67763622	67763622	+	Missense_Mutation	SNP	G	C	C	rs142221372		TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr16:67763622G>C	uc002eud.2	-	9	1224	c.1108C>G	c.(1108-1110)CCC>GCC	p.P370A	RANBP10_uc010ceo.2_Missense_Mutation_p.P141A|RANBP10_uc010vju.1_Missense_Mutation_p.P314A|RANBP10_uc010vjv.1_Missense_Mutation_p.P253A|RANBP10_uc010vjw.1_Missense_Mutation_p.P31A	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	370	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		CCATGTCGGGGACTGAGGCTG	0.602000													12	26					0	0	1	0	0	
WFIKKN2	124857	broad.mit.edu	37	17	48917788	48917788	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr17:48917788G>A	uc002isv.3	+	2	1833	c.1139G>A	c.(1138-1140)AGC>AAC	p.S380N	WFIKKN2_uc010dbu.2_Missense_Mutation_p.S287N	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	380						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			GCCTGCATGAGCGGGCCGCTG	0.662000													21	18					0	0	1	0	0	
LAMA1	284217	broad.mit.edu	37	18	7080363	7080363	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr18:7080363A>T	uc002knm.2	-	2	249	c.155T>A	c.(154-156)CTT>CAT	p.L52H	LAMA1_uc010wzj.1_Translation_Start_Site	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	52	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGCTCCACAAGTTTGCAGAA	0.562000													30	41					0	0	1	0	0	
CEP192	55125	broad.mit.edu	37	18	13087566	13087566	+	Missense_Mutation	SNP	A	T	T	rs138701530		TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr18:13087566A>T	uc010xac.1	+	32	5994	c.5914A>T	c.(5914-5916)ATC>TTC	p.I1972F	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.I1497F|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.I394F|CEP192_uc002krw.2_Missense_Mutation_p.I121F|CEP192_uc002krx.2_5'UTR|CEP192_uc002kry.2_5'Flank	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1972										ovary(4)|pancreas(1)	5						AGACAGAGGAATCAATAATAA	0.284000													12	79					0	0	1	0	0	
DOK6	220164	broad.mit.edu	37	18	67406320	67406320	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr18:67406320A>T	uc002lkl.2	+	6	909	c.719A>T	c.(718-720)GAA>GTA	p.E240V		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	240							insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				TTAATGCTAGAAATGGAACAG	0.458000													22	132					0	0	1	0	0	
ZNF714	148206	broad.mit.edu	37	19	21300801	21300801	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr19:21300801G>C	uc002npo.3	+	6	1694	c.1334G>C	c.(1333-1335)AGA>ACA	p.R445T	ZNF714_uc002npl.2_Missense_Mutation_p.R290T|ZNF714_uc010ecp.1_Missense_Mutation_p.R396T|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	445	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACACATAAGAGAATTCACACT	0.368000													17	49					0	0	1	0	0	
PNMAL2	57469	broad.mit.edu	37	19	46997109	46997109	+	Silent	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr19:46997109C>T	uc002pes.2	-	1	2061	c.1614G>A	c.(1612-1614)GCG>GCA	p.A538A	uc002peu.1_5'Flank	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	538										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		GGGCCGTGCGCGCCCTCTTGG	0.761000													6	11					0	0	1	0	0	
ZNF324	25799	broad.mit.edu	37	19	58982721	58982721	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr19:58982721G>A	uc002qsw.1	+	4	956	c.862G>A	c.(862-864)GCC>ACC	p.A288T	ZNF324_uc002qsx.1_Missense_Mutation_p.A65T	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	288	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		CTACGAGTGCGCCCAGTGCGG	0.662000													8	24					0	0	1	0	0	
RAD51AP2	729475	broad.mit.edu	37	2	17699573	17699573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:17699573C>T	uc002rcl.1	-	1	134	c.110G>A	c.(109-111)TGT>TAT	p.C37Y	RAD51AP2_uc010exn.1_Missense_Mutation_p.C28Y	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	37										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTCCTCAAGACAGAGCCGCTT	0.612000													54	63					0	0	1	0	0	
DGUOK	1716	broad.mit.edu	37	2	74173903	74173903	+	Nonsense_Mutation	SNP	C	T	T	rs104893630		TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:74173903C>T	uc002sjx.2	+	3	398	c.313C>T	c.(313-315)CGA>TGA	p.R105*	DGUOK_uc002sjy.2_Nonsense_Mutation_p.R105*|DGUOK_uc002sjz.2_RNA	NM_080916	NP_550438	Q16854	DGUOK_HUMAN	deoxyguanosine kinase isoform a precursor	105					guanosine metabolic process|purine base metabolic process|purine deoxyribonucleoside metabolic process|purine-containing compound salvage	mitochondrial matrix	ATP binding|deoxyguanosine kinase activity|phosphotransferase activity, alcohol group as acceptor				0						GGAGCCAGCACGATGGTCCTA	0.478000													22	54					0	0	1	0	0	
ZAP70	7535	broad.mit.edu	37	2	98351812	98351812	+	Silent	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:98351812C>T	uc002syd.1	+	10	1389	c.1182C>T	c.(1180-1182)GAC>GAT	p.D394D	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Silent_p.D284D|ZAP70_uc002syf.1_Silent_p.D87D	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	394	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						ACCAGCTGGACAACCCCTACA	0.632000													32	70					0	0	1	0	0	
OBFC2A	64859	broad.mit.edu	37	2	192543750	192543750	+	Silent	SNP	G	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:192543750G>C	uc002usx.2	+	2	606	c.126G>C	c.(124-126)GTG>GTC	p.V42V	OBFC2A_uc002usw.2_5'UTR|OBFC2A_uc002usy.2_RNA|OBFC2A_uc002usz.2_RNA|OBFC2A_uc002uta.2_5'UTR	NM_001031716	NP_001026886	Q96AH0	SOSB2_HUMAN	oligonucleotide/oligosaccharide-binding fold	42	OB.				double-strand break repair via homologous recombination|G2/M transition checkpoint|response to ionizing radiation	SOSS complex	single-stranded DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.061)|Epithelial(96;0.244)			GCCATGAAGTGAGATCGTGCA	0.463000													16	50					0	0	1	0	0	
ERBB4	2066	broad.mit.edu	37	2	212566719	212566719	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:212566719G>A	uc002veg.1	-	12	1560	c.1462C>T	c.(1462-1464)CGG>TGG	p.R488W	ERBB4_uc002veh.1_Missense_Mutation_p.R488W|ERBB4_uc010zji.1_Missense_Mutation_p.R488W|ERBB4_uc010zjj.1_Missense_Mutation_p.R488W|ERBB4_uc010fut.1_Missense_Mutation_p.R488W	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	488	Extracellular (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CTGTTGTCCCGGATTACTATT	0.343000										TSP Lung(8;0.080)			26	88					0	0	1	0	0	
SPHKAP	80309	broad.mit.edu	37	2	228882483	228882483	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr2:228882483T>A	uc002vpq.2	-	7	3134	c.3087A>T	c.(3085-3087)GAA>GAT	p.E1029D	SPHKAP_uc002vpp.2_Missense_Mutation_p.E1029D|SPHKAP_uc010zlx.1_Missense_Mutation_p.E1029D	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1029						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTGGGACATCTTCAAGGTTCA	0.512000													35	71					0	0	1	0	0	
CLDN8	9073	broad.mit.edu	37	21	31587611	31587611	+	Silent	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr21:31587611G>A	uc002ynu.1	-	1	708	c.633C>T	c.(631-633)ACC>ACT	p.T211T		NM_199328	NP_955360	P56748	CLD8_HUMAN	claudin 8	211	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	endoplasmic reticulum|integral to membrane|tight junction	identical protein binding|structural molecule activity				0						ACTTCTTTCCGGTGTGATAAC	0.403000													54	102					0	0	1	0	0	
LOC96610	96610	broad.mit.edu	37	22	22664606	22664606	+	RNA	SNP	A	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr22:22664606A>G	uc011aim.1	+	31		c.2121A>G			LOC96610_uc011aiq.1_RNA					Parts of antibodies, mostly variable regions.												0						GTCTTCATGCAAACTTGGTAT	0.398000													3	23					0	0	1	0	0	
RFPL2	10739	broad.mit.edu	37	22	32588982	32588982	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr22:32588982G>A	uc003amg.3	-	4	1399	c.463C>T	c.(463-465)CGG>TGG	p.R155W	RFPL2_uc003ame.3_Missense_Mutation_p.R94W|RFPL2_uc003amf.3_Missense_Mutation_p.R65W|RFPL2_uc003amh.3_Missense_Mutation_p.R65W	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	155							zinc ion binding			skin(1)	1						TCTAGCTGCCGATTGCGCCTG	0.517000													41	40					0	0	1	0	0	
KCNH8	131096	broad.mit.edu	37	3	19498281	19498281	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:19498281C>G	uc003cbk.1	+	11	2042	c.1847C>G	c.(1846-1848)GCA>GGA	p.A616G	KCNH8_uc010hex.1_Missense_Mutation_p.A77G	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	616	cNMP.|Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TTAATTGGAGCAAATCTATCA	0.378000													13	60					0	0	1	0	0	
PHLDB2	90102	broad.mit.edu	37	3	111603422	111603422	+	Silent	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:111603422G>A	uc010hqa.2	+	2	909	c.498G>A	c.(496-498)GGG>GGA	p.G166G	PHLDB2_uc003dyc.2_Silent_p.G193G|PHLDB2_uc003dyd.2_Silent_p.G166G|PHLDB2_uc003dyg.2_Silent_p.G166G|PHLDB2_uc003dyh.2_Silent_p.G166G|PHLDB2_uc003dye.3_Silent_p.G166G|PHLDB2_uc003dyf.3_Silent_p.G166G	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	166						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CTCTTGGAGGGCTGGAAGGTC	0.557000													19	63					0	0	1	0	0	
ZBTB38	253461	broad.mit.edu	37	3	141161650	141161650	+	Silent	SNP	A	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:141161650A>G	uc003etw.2	+	8	1402	c.420A>G	c.(418-420)GAA>GAG	p.E140E	ZBTB38_uc010hun.2_Silent_p.E137E|ZBTB38_uc010huo.2_Silent_p.E140E|ZBTB38_uc003ety.2_Silent_p.E140E|ZBTB38_uc010hup.2_Silent_p.E141E	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	140					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						GTATTACTGAAAAGGGAGTGG	0.418000													52	36					0	0	1	0	0	
AGTR1	185	broad.mit.edu	37	3	148459062	148459062	+	Silent	SNP	T	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:148459062T>G	uc003ewg.2	+	4	686	c.240T>G	c.(238-240)ACT>ACG	p.T80T	AGTR1_uc003ewh.2_Silent_p.T80T|AGTR1_uc003ewi.2_Silent_p.T80T|AGTR1_uc003ewj.2_Silent_p.T80T|AGTR1_uc003ewk.2_Silent_p.T80T	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	80	Helical; Name=2; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TTTTACTGACTTTGCCACTAT	0.433000													22	42					0	0	1	0	0	
SERPINI2	5276	broad.mit.edu	37	3	167189651	167189651	+	Translation_Start_Site	SNP	A	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:167189651A>C	uc003fer.1	-	1	30	c.-28T>G	c.(-30--26)ATTTT>ATGTT		SERPINI2_uc003fes.1_Intron|SERPINI2_uc003fet.1_Intron	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),						cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						TTTAAATCAAAATATATTCAT	0.343000													51	46					0	0	1	0	0	
SDHAP2	727956	broad.mit.edu	37	3	195400728	195400728	+	Silent	SNP	A	G	G	rs12107841	by1000genomes	TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:195400728A>G	uc003fuw.2	+	9	1218	c.24A>G	c.(22-24)CCA>CCG	p.P8P	SDHAP2_uc011btb.1_Missense_Mutation_p.S156G|SDHAP2_uc011btc.1_RNA|SDHAP2_uc003fuv.2_RNA					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						GATTGTGCCCAGCCTGTACGC	0.587000													7	36					0	0	1	0	0	
LOC220729	220729	broad.mit.edu	37	3	197348739	197348739	+	RNA	SNP	G	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr3:197348739G>C	uc011bug.1	-	4		c.352C>G			LOC220729_uc003fxw.2_RNA|LOC220729_uc003fxy.2_RNA|LOC220729_uc010iao.1_Intron					Homo sapiens cDNA FLJ60865 complete cds, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial precursor (EC 1.3.5.1).												0						TAATTTTCTAGCTGTGAAAGA	0.398000													7	82					0	0	1	0	0	
TLR6	10333	broad.mit.edu	37	4	38829331	38829331	+	Silent	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr4:38829331G>A	uc003gtm.2	-	1	1830	c.1764C>T	c.(1762-1764)ATC>ATT	p.I588I	TLR6_uc010ifg.1_Silent_p.I588I	NM_006068	NP_006059	Q9Y2C9	TLR6_HUMAN	toll-like receptor 6 precursor	588	Helical; (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to diacyl bacterial lipopeptide|defense response to bacterium|detection of diacyl bacterial lipopeptide|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-6 biosynthetic process|positive regulation of JUN kinase activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	integral to plasma membrane|phagocytic vesicle membrane	lipopeptide binding|transmembrane receptor activity			ovary(2)	2						CGATGGTGACGATCAGCAGAG	0.493000													27	57					0	0	1	0	0	
PRDM9	56979	broad.mit.edu	37	5	23522495	23522495	+	Silent	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr5:23522495G>A	uc003jgo.2	+	7	773	c.591G>A	c.(589-591)CCG>CCA	p.P197P		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	197					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						TCAGCGAGCCGCAGGATGATG	0.443000										HNSCC(3;0.000094)			7	69					0	0	1	0	0	
OCLN	4950	broad.mit.edu	37	5	68809860	68809860	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr5:68809860A>G	uc003jwu.2	+	4	1251	c.815A>G	c.(814-816)GAC>GGC	p.D272G	OCLN_uc003jwv.3_Missense_Mutation_p.D272G	NM_002538	NP_002529			occludin												0		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		AGAAAGATGGACAGGTATGAC	0.393000													10	24					0	0	1	0	0	
PCDHA12	56137	broad.mit.edu	37	5	140257093	140257093	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr5:140257093C>T	uc003lic.2	+	1	2163	c.2036C>T	c.(2035-2037)TCG>TTG	p.S679L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.S679L	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	679	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAAAGACGTCGTCGCGGGCC	0.657000													17	6					0	0	1	0	0	
NQO2	4835	broad.mit.edu	37	6	3017158	3017158	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr6:3017158C>G	uc003mus.2	+	6	796	c.458C>G	c.(457-459)GCC>GGC	p.A153G	NQO2_uc003mut.2_Missense_Mutation_p.A153G	NM_000904	NP_000895	P16083	NQO2_HUMAN	NAD(P)H dehydrogenase, quinone 2	153						cytoplasm|nucleus	coenzyme binding|dihydronicotinamide riboside quinone reductase activity|electron carrier activity|metal ion binding|NADPH dehydrogenase (quinone) activity			ovary(1)	1	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Menadione(DB00170)|NADH(DB00157)	GGAGGCACGGCCGAGATGTAC	0.527000													5	17					0	0	1	0	0	
LRRC1	55227	broad.mit.edu	37	6	53764636	53764636	+	Nonsense_Mutation	SNP	T	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr6:53764636T>A	uc003pcd.1	+	8	1011	c.734T>A	c.(733-735)TTA>TAA	p.L245*		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	245	LRR 11.					cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		CTGACTTCATTAACGGATTTA	0.403000													17	64					0	0	1	0	0	
FAM46A	55603	broad.mit.edu	37	6	82461589	82461589	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr6:82461589G>T	uc003pjg.2	-	2	588	c.270C>A	c.(268-270)TTC>TTA	p.F90L	FAM46A_uc003pjf.2_Missense_Mutation_p.F109L|FAM46A_uc003pjh.1_Missense_Mutation_p.F90L	NM_017633	NP_060103	Q96IP4	FA46A_HUMAN	hypothetical protein LOC55603	90											0		all_cancers(76;6.74e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000282)|all_epithelial(107;0.0104)		BRCA - Breast invasive adenocarcinoma(397;0.0428)		CGAGCGTGGGGAAGTTGCCGC	0.667000													14	34					4.7546e-09	4.95271e-09	1	1	0	
MIOS	54468	broad.mit.edu	37	7	7612723	7612723	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:7612723G>C	uc003srf.2	+	4	925	c.617G>C	c.(616-618)CGT>CCT	p.R206P	MIOS_uc010ktp.1_Missense_Mutation_p.R206P	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	206	WD 3.										0						GGTATGCATCGTAACCTAGCT	0.413000													12	53					0	0	1	0	0	
WBSCR17	64409	broad.mit.edu	37	7	70800605	70800605	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:70800605T>C	uc003tvy.2	+	2	308	c.308T>C	c.(307-309)CTT>CCT	p.L103P	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	103	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CCGGCTACTCTTTCCCCGGCT	0.463000													35	32					0	0	1	0	0	
CFTR	1080	broad.mit.edu	37	7	117267653	117267653	+	Silent	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:117267653C>T	uc003vjd.2	+	22	3678	c.3546C>T	c.(3544-3546)TAC>TAT	p.Y1182Y	CFTR_uc011knq.1_Silent_p.Y588Y	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	1182	Cytoplasmic (Potential).				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	CCAAACCATACAAGAATGGCC	0.403000									Cystic_Fibrosis				8	37					0	0	1	0	0	
CNTNAP2	26047	broad.mit.edu	37	7	146536859	146536859	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:146536859T>G	uc003weu.1	+	3	781	c.265T>G	c.(265-267)TTT>GTT	p.F89V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	89	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TCAGGTTGACTTTGGCAATCG	0.488000										HNSCC(39;0.1)			10	39					0	0	1	0	0	
ERLIN2	11160	broad.mit.edu	37	8	37611483	37611483	+	Silent	SNP	T	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr8:37611483T>A	uc003xke.3	+	12	985	c.870T>A	c.(868-870)GCT>GCA	p.A290A		NM_007175	NP_009106	O94905	ERLN2_HUMAN	ER lipid raft associated 2 isoform 1	290	Interaction with ERLIN1.|Lumenal (Potential).				ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	protein binding				0		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			AGGCCATTGCTTCCAACAGCA	0.418000													17	36					0	0	1	0	0	
LAMC3	10319	broad.mit.edu	37	9	133901754	133901754	+	Silent	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr9:133901754C>T	uc004caa.1	+	2	554	c.456C>T	c.(454-456)CGC>CGT	p.R152R		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	152	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AGCGCAGCCGCGCCGACGGCC	0.642000													38	21					0	0	1	0	0	
MAGEB1	4112	broad.mit.edu	37	X	30269583	30269583	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chrX:30269583C>T	uc004dcc.2	+	4	1293	c.973C>T	c.(973-975)CGT>TGT	p.R325C	MAGEB1_uc004dcd.2_Missense_Mutation_p.R325C|MAGEB1_uc004dce.2_Missense_Mutation_p.R325C	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	325											0						TAGAGCCAGGCGTCGCACTAC	0.527000													17	19					0	0	1	0	0	
WAS	7454	broad.mit.edu	37	X	48544341	48544341	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chrX:48544341G>A	uc004dkm.3	+	5	527	c.470G>A	c.(469-471)CGC>CAC	p.R157H		NM_000377	NP_000368	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome protein	157					blood coagulation|defense response|epidermis development|immune response|T cell receptor signaling pathway	actin cytoskeleton|cytosol	identical protein binding|small GTPase regulator activity			ovary(1)	1		all_lung(315;1.27e-10)				ACAGACAGACGCCAGCTACCC	0.567000			Mis|N|F|S			lymphoma			Wiskott-Aldrich_syndrome				5	9					0	0	1	0	0	
MRVI1	10335	broad.mit.edu	37	11	10650316	10650316	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr11:10650316delT	uc010rcc.1	-	6	1020	c.634delA	c.(634-636)ACAfs	p.T212fs	MRVI1_uc001miw.2_Frame_Shift_Del_p.T203fs|MRVI1_uc010rcb.1_Frame_Shift_Del_p.T203fs|MRVI1_uc009ygb.1_5'UTR|MRVI1_uc001mix.2_5'UTR|MRVI1_uc001miz.2_Frame_Shift_Del_p.T121fs|MRVI1_uc009ygc.1_Frame_Shift_Del_p.T121fs|MRVI1_uc010rcd.1_Frame_Shift_Del_p.T212fs|MRVI1_uc009ygd.1_5'UTR|MRVI1_uc010rce.1_RNA	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	203					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		GTGGGGACTGTAAGTGAGTTG	0.607													2	4	---	---	---	---						.
TP53	7157	broad.mit.edu	37	17	7577554	7577562	+	In_Frame_Del	DEL	TGCAGGAAC	-	-	rs121912655		TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr17:7577554_7577562delTGCAGGAAC	uc002gim.2	-	7	913_921	c.719_727delGTTCCTGCA	c.(718-729)AGTTCCTGCATG>ATG	p.SSC240del	TP53_uc002gig.1_In_Frame_Del_p.SSC240del|TP53_uc002gih.2_In_Frame_Del_p.SSC240del|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_In_Frame_Del_p.SSC108del|TP53_uc010cng.1_In_Frame_Del_p.SSC108del|TP53_uc002gii.1_In_Frame_Del_p.SSC108del|TP53_uc010cnh.1_In_Frame_Del_p.SSC240del|TP53_uc010cni.1_In_Frame_Del_p.SSC240del|TP53_uc002gij.2_In_Frame_Del_p.SSC240del|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_In_Frame_Del_p.SSC147del|TP53_uc002gio.2_In_Frame_Del_p.SSC108del	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	240_242	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).	Zinc.	C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.S241F(73)|p.C242F(63)|p.C242Y(37)|p.C242S(25)|p.S241C(24)|p.C242fs*5(16)|p.S240G(14)|p.C242R(11)|p.M243L(10)|p.S240R(8)|p.S241fs*6(8)|p.C242W(7)|p.0?(7)|p.S241Y(7)|p.S240I(6)|p.S241A(6)|p.S241del(5)|p.S241T(5)|p.N239_C242delNSSC(3)|p.M243V(3)|p.C242*(3)|p.S241S(3)|p.S240C(3)|p.S241P(3)|p.N239_S240insX(2)|p.S240S(2)|p.S240T(2)|p.C242C(2)|p.C242G(2)|p.S240fs*7(2)|p.N239_S240delNS(2)|p.S241fs*22(2)|p.C242fs*20(1)|p.C242fs*23(1)|p.Y236_M243delYMCNSSCM(1)|p.N239_S240insN(1)|p.V225fs*23(1)|p.N239fs*6(1)|p.C242_M246>L(1)|p.N239fs*4(1)|p.S240>CSC(1)|p.C238_M246delCNSSCMGGM(1)|p.S240P(1)|p.S241_C242insX(1)|p.M243fs*4(1)|p.C238fs*21(1)|p.C242fs*98(1)|p.M243fs*18(1)|p.H233fs*6(1)|p.S241fs*7(1)|p.S240fs*26(1)|p.H233_C242del10(1)|p.N239_C242>S(1)|p.S241fs*23(1)|p.S241_G245delSCMGG(1)|p.S240fs*23(1)|p.N239_C242del(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATGCCGCCCATGCAGGAACTGTTACACAT	0.579		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	23	---	---	---	---						.
CAV2	858	broad.mit.edu	37	7	116140362	116140365	+	Frame_Shift_Del	DEL	GACA	-	-			TCGA-BR-8295-01A-11D-2340-08	TCGA-BR-8295-10A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	c6bcaea6-ed22-4d55-9dc5-287205bea705	bf645fb4-90f8-4f80-93d4-59f6b049116a	g.chr7:116140362_116140365delGACA	uc003vid.2	+	2	591_594	c.199_202delGACA	c.(199-204)GACAAAfs	p.D67fs	CAV2_uc003vhv.2_Intron|CAV2_uc003vhw.2_Intron|CAV2_uc003vhx.2_Intron|CAV2_uc010lkb.1_Intron|CAV2_uc010lkc.2_RNA|CAV2_uc003vib.2_Intron|CAV2_uc003vhz.2_RNA|CAV2_uc003via.2_RNA|CAV1_uc010lkd.1_Intron|CAV1_uc010lke.1_Intron|CAV2_uc003vie.2_Intron	NM_001233	NP_001224	P51636	CAV2_HUMAN	caveolin 2 isoform a and b	67_68	Cytoplasmic (Potential).				caveola assembly|endoplasmic reticulum organization|mitochondrion organization|negative regulation of endothelial cell proliferation|positive regulation of dopamine receptor signaling pathway|regulation of mitosis|skeletal muscle fiber development|vesicle docking|vesicle fusion	caveola|extrinsic to internal side of plasma membrane|Golgi membrane|integral to plasma membrane|membrane fraction|nucleus|perinuclear region of cytoplasm|transport vesicle	D1 dopamine receptor binding|protein homodimerization activity				0	all_epithelial(6;1.53e-06)|Lung NSC(10;0.00592)|all_lung(10;0.00642)		STAD - Stomach adenocarcinoma(10;0.00878)			GCACTCCTTTGACAAAGTGTGGAT	0.569													48	48	---	---	---	---						.
